stjudecloud/workflows

Issues

• restructure to improve inlined script experience

  #190 opened 18 days ago by a-frantz
  0

• bumping a docker image necessitates failing CI before merge

  #189 opened a month ago by a-frantz
  2

• rework example JSONs

  #182 opened a month ago by a-frantz
  0

• Add a read trimming step to alignment workflows

  #179 opened 4 months ago by a-frantz
  2

• Style Guide rules under review

  #127 opened 2 months ago by a-frantz
  0

• Expose more parameters of tools

  #168 opened 5 months ago by a-frantz
  1

• Better document where GZIP input is required and where it's optional (but recommended)

  #167 opened 5 months ago by a-frantz
  0

• Add intentional pre and post checks for file emptiness

  #177 opened 5 months ago by a-frantz
  0

• Fragility in workflows around malformed/missing RG records

  #172 opened 5 months ago by a-frantz
  0

• more dynamically allocated mem

  #171 opened 5 months ago by a-frantz
  0

• Tasks that take both pos/name sorted probably need different resources

  #170 opened 5 months ago by a-frantz
  0

• FastQC `prefix` convention is fragile

  #169 opened 5 months ago by a-frantz
  0

• support Single-Ended data

  #166 opened 5 months ago by a-frantz
  0

• Picard sort task fails for non-coordinate sorts

  #155 opened 7 months ago by adthrasher
  0

• Split tasks to a new repository

  #130 opened 10 months ago by adthrasher
  1

• investigate appropriate `disk_size`s

  #88 opened 2 years ago by a-frantz
  1

• our WDL files are too long

  #115 opened a year ago by a-frantz
  0

• Modularize QC

  #84 opened a year ago by a-frantz
  2

• WDL/1.1

  #96 opened a year ago by adthrasher
  0

• Add CI for checking all tasks pull current docker images

  #56 opened 2 years ago by a-frantz
  0

• tools/htseq: Add override or fix htseq-count max-reads-in-buffer option

  #29 opened 4 years ago by zaeleus
  3

• workflows/rnaseq: 2.1.0 is not backward compatible with 2.0.0

  #45 opened 4 years ago by zaeleus
  3

• PAPIv2 Key [disk] not supported by GCP backend

  #46 opened 4 years ago by TomGardner
  5

• NGSderive step assumes plain text

  #15 opened 4 years ago by adthrasher
  1

• Remove duplicate marking

  #2 opened 5 years ago by adthrasher
  1